Strain Fitness in Pseudomonas putida KT2440 around PP_3490

Experiment: Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs

Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

Per-strain Table

Position	Strand	Gene	LocusTag	Fraction	Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs
3,953,582	+		PP_5606	0.52	-5.0
3,953,583	-		PP_5606	0.52	+0.3
3,953,583	-		PP_5606	0.52	-0.4
3,953,583	-		PP_5606	0.52	-2.8
3,953,708	+		PP_5606	0.59	-4.8
3,953,709	-		PP_5606	0.59	-0.1
3,953,709	-		PP_5606	0.59	-0.7
3,953,709	-		PP_5606	0.59	-0.9
3,953,709	-		PP_5606	0.59	-0.1
3,953,709	-		PP_5606	0.59	+1.0
3,953,715	-		PP_5606	0.59	-4.2
3,953,807	-		PP_5606	0.64	-0.8
3,953,807	-		PP_5606	0.64	-1.4
3,954,439	+				-1.3
3,954,439	+				-2.4
3,954,487	+				+0.5
3,954,488	-				+0.4
3,954,497	+				-0.3
3,954,497	+				+0.2
3,954,497	+				-4.3
3,954,498	-				+0.0
3,954,498	-				-4.0
3,954,617	+				-1.5
3,954,641	+				-1.6
3,954,710	-				-3.2
3,954,731	+				-0.6
3,954,732	-				-0.3
3,954,732	-				-0.5
3,954,732	-				+0.7
3,954,821	+				-1.3
3,954,822	-				-1.9
3,954,822	-				-2.9
3,954,822	-				+0.5
3,954,822	-				+0.6
3,954,838	+				-3.7
3,954,839	-				-0.7
3,954,839	-				+0.9
3,954,857	+				+0.9
3,954,972	-				+0.2
3,954,991	+				-2.5
3,954,991	+				-3.9
3,954,991	+				-4.0
3,954,992	-				+1.7
3,954,992	-				-1.2
3,955,077	-				-0.1
3,955,077	-				-1.8
3,955,135	-		PP_3490	0.10	+0.7
3,955,135	-		PP_3490	0.10	-0.2
3,955,260	+		PP_3490	0.12	-0.7
3,955,384	+		PP_3490	0.14	-0.1
3,955,384	+		PP_3490	0.14	+0.2
3,955,384	+				-1.4
3,955,384	+		PP_3490	0.14	+0.2
3,955,384	+		PP_3490	0.14	-4.6
3,955,385	-		PP_3490	0.14	+0.4
3,955,385	-		PP_3490	0.14	-2.1
3,955,385	-		PP_3490	0.14	+0.7
3,955,385	-		PP_3490	0.14	-1.4
3,955,385	-		PP_3490	0.14	-1.5
3,955,448	+		PP_3490	0.16	-1.2
3,955,448	+		PP_3490	0.16	-0.4
3,955,457	+		PP_3490	0.16	+0.2
3,955,457	+		PP_3490	0.16	-0.6
3,955,458	-		PP_3490	0.16	-1.7
3,955,757	-		PP_3490	0.21	+1.3
3,955,826	+		PP_3490	0.22	-2.3
3,955,930	-		PP_3490	0.24	+1.8
3,956,067	-		PP_3490	0.26	+1.2
3,956,213	+		PP_3490	0.29	-4.2
3,956,213	+		PP_3490	0.29	-1.4
3,956,213	+		PP_3490	0.29	-4.3
3,956,214	-		PP_3490	0.29	-3.8
3,956,235	+		PP_3490	0.29	-4.1
3,956,236	-		PP_3490	0.29	+2.1
3,956,273	+		PP_3490	0.30	-0.4
3,956,279	+		PP_3490	0.30	+0.5
3,956,279	+		PP_3490	0.30	+0.1
3,956,442	+		PP_3490	0.33	-0.5
3,956,442	+		PP_3490	0.33	-1.2
3,956,443	-		PP_3490	0.33	-1.7
3,956,443	-		PP_3490	0.33	+0.1
3,956,482	+		PP_3490	0.33	-0.5
3,956,498	+		PP_3490	0.33	-1.0
3,956,503	-		PP_3490	0.34	+0.0
3,956,554	-		PP_3490	0.34	-0.2
3,956,554	-		PP_3490	0.34	+0.7
3,956,571	+		PP_3490	0.35	-1.3
3,956,572	-		PP_3490	0.35	-1.0
3,956,663	+		PP_3490	0.36	-0.4
3,956,663	+		PP_3490	0.36	-3.1
3,956,664	-		PP_3490	0.36	-0.5
3,956,664	-		PP_3490	0.36	-2.2
3,956,735	+		PP_3490	0.38	-4.2
3,956,736	-		PP_3490	0.38	-4.8
3,956,765	+		PP_3490	0.38	-2.5
3,956,977	+		PP_3490	0.42	+1.1
3,956,978	-		PP_3490	0.42	-0.9
3,956,981	+		PP_3490	0.42	-1.0
3,956,981	+		PP_3490	0.42	+0.8
3,956,982	-		PP_3490	0.42	-0.5
3,956,982	-		PP_3490	0.42	+0.3
3,956,982	-		PP_3490	0.42	-0.6
3,956,996	+		PP_3490	0.42	-0.8
3,956,996	+		PP_3490	0.42	-1.3
3,956,996	+		PP_3490	0.42	-1.4
3,956,996	+		PP_3490	0.42	-2.4
3,956,997	-		PP_3490	0.42	-1.6
3,956,997	-		PP_3490	0.42	+0.4
3,957,018	-		PP_3490	0.42	-0.9
3,957,038	+		PP_3490	0.43	-1.0
3,957,038	+		PP_3490	0.43	+0.5
3,957,039	-		PP_3490	0.43	-1.1
3,957,132	-		PP_3490	0.44	+1.0
3,957,197	+		PP_3490	0.45	-0.5
3,957,197	+		PP_3490	0.45	-0.1
3,957,198	-		PP_3490	0.45	-3.5
3,957,198	-		PP_3490	0.45	-0.9
3,957,253	-		PP_3490	0.46	+0.2
3,957,273	+		PP_3490	0.47	+0.0
3,957,274	-		PP_3490	0.47	-0.6
3,957,359	+		PP_3490	0.48	-0.7
3,957,359	+		PP_3490	0.48	-0.5
3,957,429	-		PP_3490	0.49	-1.0
3,957,446	-		PP_3490	0.50	-2.6
3,957,488	+		PP_3490	0.50	-1.7
3,957,489	-		PP_3490	0.50	+1.9
3,957,489	-		PP_3490	0.50	-0.7
3,957,489	-		PP_3490	0.50	-4.5
3,957,584	+		PP_3490	0.52	-0.4
3,957,584	+		PP_3490	0.52	+0.4
3,957,599	+		PP_3490	0.52	-3.1
3,957,599	+		PP_3490	0.52	-1.1
3,957,600	-				-1.2
3,957,629	+		PP_3490	0.53	-4.3
3,957,630	-		PP_3490	0.53	-0.0
3,957,654	+		PP_3490	0.53	+0.1
3,957,654	+		PP_3490	0.53	-1.0
3,957,690	+		PP_3490	0.54	-3.7
3,957,761	+		PP_3490	0.55	-1.4
3,957,761	+		PP_3490	0.55	-0.8
3,957,762	-		PP_3490	0.55	+2.0
3,957,794	+		PP_3490	0.56	-0.2
3,957,794	+		PP_3490	0.56	-1.6
3,957,795	-		PP_3490	0.56	-2.9
3,957,930	-		PP_3490	0.58	-1.3
3,958,010	+		PP_3490	0.59	-1.9
3,958,082	+		PP_3490	0.61	-0.6
3,958,240	-		PP_3490	0.63	-4.3
3,958,784	+		PP_3490	0.73	+0.3
3,958,841	+		PP_3490	0.74	-0.9
3,958,841	+		PP_3490	0.74	-3.2
3,958,842	-		PP_3490	0.74	-0.2
3,958,847	+		PP_3490	0.74	-3.4
3,958,848	-				+0.0
3,958,884	-		PP_3490	0.74	-0.2
3,958,993	-		PP_3490	0.76	-0.4
3,958,993	-		PP_3490	0.76	-0.4
3,958,994	+		PP_3490	0.76	-3.8
3,958,995	-		PP_3490	0.76	-1.7
3,958,995	-		PP_3490	0.76	-2.5
3,959,114	-		PP_3490	0.78	-0.3
3,959,131	+		PP_3490	0.79	-3.1
3,959,131	+		PP_3490	0.79	-1.3
3,959,131	+		PP_3490	0.79	-1.4
3,959,131	+		PP_3490	0.79	-1.3
3,959,132	-		PP_3490	0.79	-1.0
3,959,132	-				-0.2
3,959,132	-		PP_3490	0.79	-2.2
3,959,171	+		PP_3490	0.79	+0.1
3,959,171	+		PP_3490	0.79	+0.1
3,959,172	-		PP_3490	0.79	-1.5
3,959,252	+		PP_3490	0.81	-3.2
3,959,253	-		PP_3490	0.81	-0.9
3,959,752	-		PP_3490	0.89	-0.4
3,959,804	+				-3.8
3,959,854	-				-1.4
3,959,855	+				-0.5
3,959,856	-				-0.4
3,959,866	-				-0.8
3,960,039	-				-0.5
3,960,100	-				-0.4
3,960,343	+				+0.5
3,960,344	-				-0.7
3,960,344	-				-0.7
3,960,464	+				-0.2
3,960,693	-				-3.5
3,960,753	+				+0.1
3,960,754	-				-4.0
3,960,883	-		PP_3491	0.16	-1.4
3,960,883	-		PP_3491	0.16	+0.2
3,960,951	-		PP_3491	0.22	-0.8
3,961,004	+		PP_3491	0.27	+1.5
3,961,005	-		PP_3491	0.27	-0.6
3,961,044	+		PP_3491	0.31	-3.5
3,961,044	+		PP_3491	0.31	-1.1
3,961,045	-		PP_3491	0.31	+1.0
3,961,045	-		PP_3491	0.31	+1.3
3,961,160	+		PP_3491	0.42	-0.1
3,961,161	-		PP_3491	0.42	-0.5
3,961,184	+		PP_3491	0.44	+0.0
3,961,184	+		PP_3491	0.44	-1.1
3,961,185	-		PP_3491	0.44	-1.9
3,961,185	-		PP_3491	0.44	+1.2
3,961,185	-		PP_3491	0.44	+0.0
3,961,220	+		PP_3491	0.47	-2.8
3,961,220	+		PP_3491	0.47	-3.4
3,961,220	+		PP_3491	0.47	-0.6
3,961,221	-		PP_3491	0.47	+0.3
3,961,265	+		PP_3491	0.51	+0.5
3,961,266	-		PP_3491	0.51	-1.2
3,961,266	-		PP_3491	0.51	-0.9
3,961,286	+		PP_3491	0.53	+0.5
3,961,286	+		PP_3491	0.53	+0.1
3,961,287	-		PP_3491	0.53	+0.8